bigbio

bigbio.github.io

bigbio.github.io

dleamse

A Deep LEArning-based Mass Spectra Embedder for spectral similarity scoring

elastic-multiomics

Library to store ms information in elastic search.

fsspark

Spark library for feature selection in multiomics using

ibaqpy

Absolute quantification package based on quantms.io

jmztab

Version of jmzTab library

jsdrf

java library to validate SDRF file formats

lucxor

JAVA-based implementation of LuciPHOr that can process any variable PTM.

mad_decoy

Mad decoy is a decoy simulation tool to assess large-scale merge of q-values.

msgfplus

MS-GF+ (aka MSGF+ or MSGFPlus) performs peptide identification by scoring MS/MS spectra against peptides derived from a protein sequence database.

nf-workflows

Repository of Nextflow+BioContainers workflows

nfpepgenome

Workflow to map peptide and psms to genome coordinates

openmsrescore

OpenMS MSRescore tool, integration tool between MS2Rescore and OpenMS

pepbedr

PepBedR: R-package allow to process bed and bigBed files from peptide evidences

pepgenome

Proteogenomics tool that enables to map peptides to genome coordinates

pepgenomegui

An open-source Java tool to convert peptide evidences to genome coordinates.

pgatk

PGATK: ProteoGenomics Analysis ToolKit

pgatk-io

High performance io library for proteogenomics

pgatk-utilities

Classes and utilities to handle mass spectrometry data

pgdb

ProteomeGenomics Database Creation - Nextflow Pipeline

pgt-pangenome

Protegenomics analysis based on Pangenome references

pia

:books: :microscope: PIA - Protein Inference Algorithms

pir

Estimation of isoelectric point of peptides and proteins using Support vector machines

pmultiqc

A library for QC report based on MultiQC framework

pquant

R package for protemics downstream a analysis

proma

PROMA: PROteomics Metadata Annotator

proteomics-sample-metadata

The Proteomics Experimental Design file format: Standard for experimental design annotation

py-pgatk

Python tools for proteogenomics analysis toolkit

pyspectrafuse

Python library with utility scripts for spectrafuse pipeline